genome.fa.s7988.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01007988.1 Hibiscus syriacus cultivar Beakdansim tig00110435_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  847207

Tables:   1   2   3   4   

This is table  3  of  4  ( 420 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511061--511099	2	19.5	2	100	0	78	51	0	0	48	1.00
514415--514454	20	2.0	21	90	5	64	12	30	32	25	1.92
515073--515104	15	2.1	15	100	0	64	12	25	34	28	1.92
521155--521204	15	3.3	15	100	0	100	14	24	34	28	1.93
521188--521235	18	2.7	18	90	0	78	14	22	37	25	1.92
528427--528476	12	4.2	12	82	2	57	60	4	0	36	1.16
534624--534800	86	2.1	86	87	0	255	22	18	22	37	1.94
537244--537269	7	3.7	7	100	0	52	26	11	15	46	1.80
538283--538334	23	2.2	24	86	3	70	26	13	11	48	1.77
538545--538617	38	1.9	38	97	0	137	38	12	20	28	1.89
539290--539343	20	2.7	21	80	8	76	29	27	14	27	1.95
539366--539474	20	5.4	20	88	0	128	37	22	18	21	1.94
539384--539531	60	2.5	60	86	4	192	39	20	18	20	1.92
539379--539531	20	7.7	20	76	8	150	39	20	18	20	1.93
539659--539709	22	2.3	22	79	0	66	25	41	11	21	1.87
539967--540030	20	3.2	20	93	0	110	9	20	17	53	1.71
543655--543794	66	2.2	62	85	7	176	30	1	17	51	1.54
543879--543922	20	2.2	20	91	0	70	36	25	22	15	1.94
544161--544243	39	2.1	39	86	0	112	19	13	20	46	1.82
544623--544672	25	2.0	25	96	0	91	44	22	8	26	1.80
544794--544851	20	2.9	20	86	0	89	18	18	22	39	1.92
545176--545211	18	2.0	18	94	0	63	19	2	22	55	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547469--547522	24	2.2	24	86	0	72	42	18	16	22	1.89
548429--548539	19	5.6	20	74	12	95	25	13	24	36	1.92
555016--555050	18	1.9	18	100	0	70	25	34	22	17	1.96
557886--557930	19	2.4	18	77	3	54	46	15	0	37	1.46
559340--559436	23	4.1	23	75	17	67	46	3	0	50	1.17
559400--559446	22	2.1	22	88	4	67	44	2	0	53	1.12
559394--559471	31	2.4	32	79	14	81	47	3	0	48	1.20
559456--559508	26	2.0	28	81	7	65	47	0	1	50	1.12
559556--559624	19	3.6	18	71	21	52	47	2	1	47	1.25
559619--559663	23	2.0	23	86	0	63	53	2	2	42	1.25
559632--559803	89	1.9	89	81	9	208	50	3	0	45	1.23
560585--560670	43	2.0	43	100	0	172	30	11	16	41	1.83
576936--576977	18	2.5	17	80	7	50	54	0	0	45	0.99
577319--577391	15	4.9	15	72	3	76	42	6	19	31	1.77
577319--577391	30	2.5	30	88	2	112	42	6	19	31	1.77
577720--577783	27	2.3	26	82	12	74	50	1	0	48	1.10
577727--577828	31	3.1	33	74	20	88	52	1	0	45	1.12
577777--577890	28	3.8	30	76	16	96	49	0	2	47	1.21
577868--577918	21	2.3	23	86	10	70	49	0	0	50	1.00
578090--578205	42	2.8	42	88	5	180	48	18	15	17	1.82
603058--603139	7	11.7	7	84	0	101	43	32	0	23	1.54
603056--603138	21	4.0	21	85	0	121	43	32	0	24	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603093--603147	28	2.0	28	88	0	83	43	29	0	27	1.55
603224--603248	7	3.6	7	100	0	50	60	24	0	16	1.36
603257--603291	14	2.6	14	90	4	54	37	40	8	14	1.76
609099--609157	30	2.0	29	83	3	73	35	8	22	33	1.84
609356--609455	46	2.2	46	80	10	107	20	22	24	34	1.97
609396--609455	23	2.6	23	86	0	84	18	23	26	31	1.97
612590--612663	20	3.7	20	98	0	139	24	14	39	21	1.91
613853--613911	30	2.0	29	83	3	73	37	6	22	33	1.80
614143--614233	23	4.0	23	86	0	128	17	25	25	31	1.97
614670--614698	2	14.5	2	100	0	58	48	0	0	51	1.00
620164--620235	35	2.1	34	87	5	101	44	20	4	30	1.71
624220--624267	16	3.0	16	90	0	69	43	20	0	35	1.52
642369--642408	3	13.3	3	94	0	71	65	0	2	32	1.06
651759--651817	30	2.0	30	93	0	100	20	20	3	55	1.57
654403--654432	10	3.0	10	95	0	51	20	10	16	53	1.71
656005--656067	10	5.6	11	75	17	51	25	34	28	11	1.90
656040--656096	14	4.1	14	95	0	105	21	42	29	7	1.79
656113--656159	23	2.0	23	87	0	67	25	23	38	12	1.90
656168--656281	29	3.9	29	94	0	192	21	28	35	14	1.93
657110--657184	29	2.5	30	82	4	107	14	26	37	21	1.92
657366--657440	29	2.5	30	86	4	125	20	37	29	13	1.90
658227--658301	29	2.5	30	85	12	118	14	25	36	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659657--659702	23	2.0	23	82	0	56	23	26	36	13	1.91
670368--670415	21	2.3	21	92	3	80	25	20	16	37	1.93
670306--670478	20	8.6	21	75	4	81	33	23	14	28	1.94
670636--670672	16	2.4	15	86	8	56	29	0	0	70	0.88
671226--671259	12	2.8	12	90	0	50	55	29	0	14	1.40
671385--671438	24	2.2	24	93	0	90	20	18	20	40	1.91
671614--671654	6	6.8	6	94	0	55	73	7	19	0	1.07
673697--673732	18	2.0	18	88	0	54	55	19	2	22	1.56
674196--674247	25	2.1	25	92	0	86	30	7	15	46	1.74
674616--674678	24	2.6	25	80	9	69	36	3	12	47	1.58
674627--674679	24	2.2	24	89	0	79	37	1	13	47	1.54
674981--675067	39	2.2	39	95	0	156	48	20	13	17	1.81
675421--675474	14	3.9	14	82	0	72	48	18	0	33	1.49
677124--677167	17	2.6	17	82	3	54	70	2	0	27	0.99
677125--677167	4	10.5	4	80	5	50	69	2	0	27	1.00
677340--677439	42	2.4	41	75	8	103	32	36	13	19	1.89
677516--677583	33	2.1	33	85	0	91	23	7	48	20	1.74
679115--679152	20	1.9	21	89	10	62	50	21	18	10	1.76
679433--679479	22	2.1	22	88	0	67	25	14	40	19	1.90
679611--679755	20	7.2	20	81	9	93	22	15	24	37	1.93
679664--679753	40	2.3	39	82	5	108	25	15	25	33	1.95
680207--680274	34	2.1	33	86	13	97	48	2	2	45	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
680410--680467	29	2.0	29	86	0	80	15	34	25	24	1.95
680511--680559	23	2.1	23	92	0	80	24	28	34	12	1.91
683623--683647	12	2.1	12	100	0	50	40	0	0	60	0.97
687110--687215	15	7.5	15	65	19	57	39	1	5	52	1.36
687093--687223	42	3.1	42	97	0	244	40	2	6	51	1.39
687588--687627	2	21.0	2	85	10	57	52	0	0	47	1.00
691009--691040	3	10.7	3	93	0	55	37	0	0	62	0.95
700610--700691	21	4.0	21	70	12	71	21	25	17	35	1.95
700681--700732	21	2.5	21	87	3	70	38	17	23	21	1.93
700666--700958	41	7.2	41	77	6	195	33	20	19	27	1.96
700742--700814	21	3.5	21	79	3	76	23	21	17	36	1.94
700804--700955	20	7.6	20	84	2	189	38	20	20	21	1.94
700804--700937	40	3.3	40	92	2	214	39	19	20	20	1.93
700681--700937	61	4.2	62	73	6	204	35	19	19	25	1.96
701240--701272	11	3.0	11	100	0	66	0	0	9	90	0.44
701523--701610	33	2.6	33	92	1	149	12	25	21	40	1.88
701578--701635	20	2.9	20	80	10	64	13	24	18	43	1.87
705201--705234	14	2.4	14	95	0	59	32	0	23	44	1.54
705341--705387	19	2.5	19	96	0	85	44	21	21	12	1.85
705412--705562	19	8.7	19	63	21	71	14	21	20	43	1.88
705416--705542	33	3.9	32	86	8	184	14	22	19	44	1.86
705409--705541	66	2.0	66	95	0	239	15	21	19	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
707352--707412	21	2.9	21	71	9	61	22	13	40	22	1.89
707324--707412	42	2.1	42	85	0	124	22	14	39	23	1.91
707775--707825	19	2.6	19	87	3	66	35	29	15	19	1.93
707780--707865	20	4.4	20	82	2	95	38	25	20	15	1.92
707780--707872	39	2.4	39	76	3	98	40	24	19	15	1.90
707891--707954	19	3.7	18	72	21	64	12	18	21	46	1.82
707940--707982	20	2.2	20	87	4	61	18	23	20	37	1.94
708528--708575	18	2.7	18	93	0	87	14	12	45	27	1.81
709850--709892	20	2.2	20	95	0	77	53	18	18	9	1.70
710406--710472	20	3.3	20	87	0	98	28	13	29	28	1.94

Tables:   1   2   3   4